CRIMSON: An open-source software framework for cardiovascular integrated modelling and simulation
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Published:2021-05-10
Issue:5
Volume:17
Page:e1008881
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ISSN:1553-7358
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Container-title:PLOS Computational Biology
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language:en
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Short-container-title:PLoS Comput Biol
Author:
Arthurs Christopher J.ORCID, Khlebnikov Rostislav, Melville AlexORCID, Marčan Marija, Gomez AlbertoORCID, Dillon-Murphy DesmondORCID, Cuomo FedericaORCID, Silva Vieira Miguel, Schollenberger JonasORCID, Lynch Sabrina R.ORCID, Tossas-Betancourt ChristopherORCID, Iyer KritikaORCID, Hopper Sara, Livingston ElizabethORCID, Youssefi Pouya, Noorani Alia, Ben Ahmed SabrinaORCID, Nauta Foeke J. H., van Bakel Theodorus M. J.ORCID, Ahmed YunusORCID, van Bakel Petrus A. J., Mynard JonathanORCID, Di Achille PaoloORCID, Gharahi Hamid, Lau Kevin D., Filonova VasilinaORCID, Aguirre MiquelORCID, Nama NiteshORCID, Xiao NanORCID, Baek SeungikORCID, Garikipati KrishnaORCID, Sahni Onkar, Nordsletten David, Figueroa C. AlbertoORCID
Abstract
In this work, we describe the CRIMSON (CardiovasculaR Integrated Modelling and SimulatiON) software environment. CRIMSON provides a powerful, customizable and user-friendly system for performing three-dimensional and reduced-order computational haemodynamics studies via a pipeline which involves: 1) segmenting vascular structures from medical images; 2) constructing analytic arterial and venous geometric models; 3) performing finite element mesh generation; 4) designing, and 5) applying boundary conditions; 6) running incompressible Navier-Stokes simulations of blood flow with fluid-structure interaction capabilities; and 7) post-processing and visualizing the results, including velocity, pressure and wall shear stress fields. A key aim of CRIMSON is to create a software environment that makes powerful computational haemodynamics tools accessible to a wide audience, including clinicians and students, both within our research laboratories and throughout the community. The overall philosophy is to leverage best-in-class open source standards for medical image processing, parallel flow computation, geometric solid modelling, data assimilation, and mesh generation. It is actively used by researchers in Europe, North and South America, Asia, and Australia. It has been applied to numerous clinical problems; we illustrate applications of CRIMSON to real-world problems using examples ranging from pre-operative surgical planning to medical device design optimization.
Funder
H2020 European Research Council National Institutes of Health Wellcome Trust Medical Research Council of Australia National Heart Foundation of Australia Engineering and Physical Sciences Research Council
Publisher
Public Library of Science (PLoS)
Subject
Computational Theory and Mathematics,Cellular and Molecular Neuroscience,Genetics,Molecular Biology,Ecology,Modeling and Simulation,Ecology, Evolution, Behavior and Systematics
Cited by
40 articles.
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